test HMMER colour scheme

[jalview.git] / test / jalview / io / HMMFileTest.java

diff --git a/test/jalview/io/HMMFileTest.java b/test/jalview/io/HMMFileTest.java
index 8ac2cf8..7350c04 100644 (file)
--- a/test/jalview/io/HMMFileTest.java
+++ b/test/jalview/io/HMMFileTest.java
@@ -21,13 +21,16 @@ public class HMMFileTest {
 
 
   HMMFile fn3 = new HMMFile(
-          new FileParse("H:/fn3.hmm", DataSourceType.FILE));
+          new FileParse("test/jalview/io/test_fn3_hmm.txt",
+                  DataSourceType.FILE));
 
   HMMFile pKinase = new HMMFile(
-          new FileParse("H:/Pkinase.hmm", DataSourceType.FILE));
+          new FileParse("test/jalview/io/test_PKinase_hmm.txt",
+                  DataSourceType.FILE));
 
   HMMFile made1 = new HMMFile(
-          new FileParse("H:/MADE1.hmm", DataSourceType.FILE));
+          new FileParse("test/jalview/io/test_MADE1_hmm.txt",
+                  DataSourceType.FILE));
 
   HMMFileTest() throws IOException
   {
@@ -145,7 +148,8 @@ public class HMMFileTest {
   @Test
   public void testParseFileProperties() throws IOException
   {
-    FileReader fr = new FileReader(new File("H:/fn3.hmm"));
+    FileReader fr = new FileReader(
+            new File("test/jalview/io/test_fn3_hmm.txt"));
     BufferedReader br = new BufferedReader(fr);
     fn3.parseFileProperties(br);
     fn3.parseModel(br); // this is for a later test
@@ -179,7 +183,8 @@ public class HMMFileTest {
     assertEquals(testHMM.getForward(), "-3.8341  0.71847");
   
   
-    FileReader fr3 = new FileReader(new File("H:/MADE1.hmm"));
+    FileReader fr3 = new FileReader(
+            new File("test/jalview/io/test_MADE1_hmm.txt"));
     BufferedReader br3 = new BufferedReader(fr3);
     made1.parseFileProperties(br3);
     testHMM = made1.getHMM();
@@ -264,7 +269,8 @@ public class HMMFileTest {
   @Test
   public void testParseModel() throws IOException
   {
-    FileReader fr = new FileReader(new File("H:/MADE1.hmm"));
+    FileReader fr = new FileReader(
+            new File("test/jalview/io/test_MADE1_hmm.txt"));
     BufferedReader br = new BufferedReader(fr);
     HiddenMarkovModel testHMM = new HiddenMarkovModel();
     for (int i = 0; i < 24; i++)
@@ -367,9 +373,10 @@ public class HMMFileTest {
   @Test(priority = 3)
   public void testExportFile() throws IOException
   {
-    fn3.exportFile("H:/WriteFileTest.txt");
+    fn3.exportFile("test/jalview/io/test_export_hmm.txt");
     HMMFile fn3Clone = new HMMFile(
-            new FileParse("H:/WriteFileTest.txt", DataSourceType.FILE));
+            new FileParse("test/jalview/io/test_export_hmm.txt",
+                    DataSourceType.FILE));
     fn3Clone.parse();
     HiddenMarkovModel fn3HMM = new HiddenMarkovModel();
     HiddenMarkovModel fn3CloneHMM = new HiddenMarkovModel();